Charlie4z
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000026 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 167 |
| Kimura value | 29.90 |
| Tau index | 0.7613 |
| Description | hAT-Charlie DNA transposon, Charlie4z subfamily |
| Comment | 84% ID to MER80B. Not really an internal deletion product, but more like a "Ds" for the Charlie4 "Ac", having almost identical TIRs. |
| Sequence |
CAGGGGTTCTTAACCTGGGGTCCATGGATGGGCTTCAGGGGGTCCGTGAACCCCCTGAAATTGTATGCAAAATTTTGTGCGTATGTGCATTTTTCTGGGGAGAGGGTCCATAGCTTTCATCAGATTCTCAAAGGGGTCCGTGACCCCAAAAAGGTTAAGAACCACTG
|
TF motifs of the concenus sequence
Use FIMO to detect transcription factor motifs in the concenus sequence of the TE family.
| TE_family | TFBS | Start | End | Strand | Score | Matched sequence |
|---|---|---|---|---|---|---|
| Charlie4z | usp | 139 | 147 | - | 17.04 | GGGGTCACG |
| Charlie4z | USV1 | 34 | 43 | - | 15.98 | ACCCCCTGAA |
| Charlie4z | USV1 | 50 | 59 | + | 15.98 | ACCCCCTGAA |
| Charlie4z | NR2F1 | 133 | 147 | + | 15.84 | GGGGTCCGTGACCCC |
| Charlie4z | DOF4.2 | 148 | 158 | + | 15.27 | AAAAAGGTTAA |
| Charlie4z | NR2F1 | 133 | 147 | - | 15.18 | GGGGTCACGGACCCC |
| Charlie4z | RXRB | 134 | 147 | + | 14.78 | GGGTCCGTGACCCC |
| Charlie4z | NR4A2::RXRA | 134 | 146 | + | 14.31 | GGGTCCGTGACCC |
| Charlie4z | NR2F6 | 133 | 147 | - | 13.96 | GGGGTCACGGACCCC |
| Charlie4z | ZNF454 | 36 | 52 | - | 13.85 | GGTTCACGGACCCCCTG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
